Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g02290.R2

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 3966
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25


Found at i:1865 original size:9 final size:9

Alignment explanation


    Indices: 1853--1886  Score: 50
    Period size: 9  Copynumber: 3.8  Consensus size: 9

       1843 ATGATGAGTC

                     
       1853 TGATGAAGA
          1 TGATGAAGA

                     
       1862 TGATGAAGA
          1 TGATGAAGA

             *       
       1871 TTATGAAGA
          1 TGATGAAGA

            *      
       1880 CGATGAA
          1 TGATGAA

       1887 TGTGATGACG


Statistics
Matches: 22,  Mismatches: 3, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
   9   22  1.00

ACGTcount: A:0.44, C:0.03, G:0.29, T:0.24


Consensus pattern (9 bp):   
TGATGAAGA

Found at i:3040 original size:87 final size:87

Alignment explanation


    Indices: 2890--3220  Score: 484
    Period size: 87  Copynumber: 3.8  Consensus size: 87

       2880 GTTCAAATGA

                  *   *               **                             *       
       2890 AGGAAATGAAAGTGGACAAAGCGGAAGGTGAGAAAGGGAAGAAGCAAGAATCATCTATGGCAAAT
          1 AGGAAACGAATGTGGACAAAGCGGAATCTGAGAAAGGGAAGAAGCAAGAATCATCTACGGCAAAT

                 *                
       2955 AAACACAAGAATCTGGTTCAGC
         66 AAACAAAAGAATCTGGTTCAGC

                  * *                                                 *      
       2977 AGGAAATGGATGTGGACAAAGCGGAATCTGAGAAAGGGAAGAAGCAAGAATCATCTACAGCAAAT
          1 AGGAAACGAATGTGGACAAAGCGGAATCTGAGAAAGGGAAGAAGCAAGAATCATCTACGGCAAAT

                 *       *        
       3042 AAACATAAGAATCCGGTTCAGC
         66 AAACAAAAGAATCTGGTTCAGC

                                  *     *                                *   
       3064 AGGAAACGAATGTGGACAAAGCTGAATCCGAGAAAGGGAAGAAGCAAGAATCAT-TCACGGAAAA
          1 AGGAAACGAATGTGGACAAAGCGGAATCTGAGAAAGGGAAGAAGCAAGAATCATCT-ACGGCAAA

                            *      
       3128 TAAACAAAAGAATCTGCTTCAGC
         65 TAAACAAAAGAATCTGGTTCAGC

                                 **   *                                      
       3151 AGGAAACGAATGTGGACAAAGTAGAACCTGAGAAAGGGAAGAAGCAAGAATCATCTACGGCAAAT
          1 AGGAAACGAATGTGGACAAAGCGGAATCTGAGAAAGGGAAGAAGCAAGAATCATCTACGGCAAAT

                 
       3216 AAACA
         66 AAACA

       3221 TTCACCTCAA


Statistics
Matches: 220,  Mismatches: 22, Indels: 4
        0.89            0.09        0.02

Matches are distributed among these distances:
  86    1  0.00
  87  218  0.99
  88    1  0.00

ACGTcount: A:0.46, C:0.15, G:0.26, T:0.14


Consensus pattern (87 bp):   
AGGAAACGAATGTGGACAAAGCGGAATCTGAGAAAGGGAAGAAGCAAGAATCATCTACGGCAAAT
AAACAAAAGAATCTGGTTCAGC

Done.